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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 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=> 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - 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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - 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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - 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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - 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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - 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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 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'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ), 'gf_id' => 'HOM05D001042', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001042' ), 'data_identifier' => 'HOM05D001042', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001042', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '582', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p01560' => 'bna', 'A03p01580' => 'bna', 'A03p32050' => 'bna', 'A06p09170' => 'bna', 'A06p18440' => 'bna', 'A06p40690' => 'bna', 'A07p37710' => 'bna', 'A09p03560' => 'bna', 'A09p49320' => 'bna', 'Aa31LG10G11260' => 'aar', 'Aa31LG2G420' => 'aar', 'Aa31LG2G4770' => 'aar', 'Aa31LG5G11480' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.1133' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4110' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.459' => 'aag', 'Actinidia01002' => 'ach', 'Actinidia01003' => 'ach', 'Actinidia02069' => 'ach', 'Actinidia07792' => 'ach', 'Actinidia22255' => 'ach', 'Ah.04g149860' => 'amhyb', 'Ah.08g222170' => 'amhyb', 'Ah.10g026530' => 'amhyb', 'Ah.12g058000' => 'amhyb', 'Ah.13g077610' => 'amhyb', 'Ah.15g090000' => 'amhyb', 'AL1G23810' => 'aly', 'AL2G12700' => 'aly', 'AL5G17560' => 'aly', 'AL5G37700' => 'aly', 'AL6G10140' => 'aly', 'Aqoxy2G04072' => 'aox', 'Aqoxy4G02430' => 'aox', 'Aqoxy5G03062' => 'aox', 'Aqoxy7G00580' => 'aox', 'Aqoxy7G02730' => 'aox', 'Aqoxy7G02970' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2YV87W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.71MEN5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BYL898' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C29XKN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FH2UJN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J5F3TG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N8122S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PLPB1B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WH36JS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXI3SW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZFBN83' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZJXU8Q' => 'arhy', 'AT1G12460' => 'ath', 'AT1G62950' => 'ath', 'AT3G28040' => 'ath', 'AT3G56370' => 'ath', 'AT5G01890' => 'ath', 'ATR0757G001' => 'atr', 'ATR1127G069' => 'atr', 'ATR1145G093' => 'atr', 'Atru.chr12.215' => 'acertr', 'Atru.chr3.1753' => 'acertr', 'Atru.chr8.112' => 'acertr', 'Atru.chr9.1476' => 'acertr', 'AUR62006419' => 'cqu', 'AUR62010539' => 'cqu', 'AUR62017356' => 'cqu', 'AUR62018487' => 'cqu', 'AUR62020933' => 'cqu', 'AUR62024936' => 'cqu', 'AUR62029767' => 'cqu', 'AUR62030608' => 'cqu', 'BcaB04g17475' => 'bca', 'BcaB04g19453' => 'bca', 'BcaB05g21903' => 'bca', 'BcaC03g13102' => 'bca', 'BcaC04g22458' => 'bca', 'BcaC04g23885' => 'bca', 'BcaC05g25137' => 'bca', 'BcaC05g25188' => 'bca', 'BcaC05g29297' => 'bca', 'BcaC06g30936' => 'bca', 'BcaC06g33759' => 'bca', 'BcaC07g39951' => 'bca', 'BcaNung01485' => 'bca', 'BNapus_Darmor_BZH_scaffold_209p00050' => 'bna', 'BolC1t02782H' => 'bol', 'BolC2t05991H' => 'bol', 'BolC5t29816H' => 'bol', 'BolC7t44238H' => 'bol', 'BolC7t45731H' => 'bol', 'BolC8t50790H' => 'bol', 'BolC9t53304H' => 'bol', 'BolC9t54815H' => 'bol', 'BraA01t04587Z' => 'bra', 'BraA02t04672Z' => 'bra', 'BraA03t15626Z' => 'bra', 'BraA05t20131Z' => 'bra', 'BraA06t24103Z' => 'bra', 'BraA06t26990Z' => 'bra', 'BraA09t35994Z' => 'bra', 'BraA09t37238Z' => 'bra', 'BraA09t38172Z' => 'bra', 'BraA09t38190Z' => 'bra', 'BraA09t40386Z' => 'bra', 'C01p28450' => 'bna', 'C05p10750' => 'bna', 'C05p55810' => 'bna', 'C07p37290' => 'bna', 'C08p31690' => 'bna', 'C09p03800' => 'bna', 'C09p19080' => 'bna', 'CAN.G1195.6' => 'can', 'CAN.G1215.6' => 'can', 'CAN.G1294.1' => 'can', 'CAN.G17.17' => 'can', 'CAN.G1740.5' => 'can', 'CAN.G276.14' => 'can', 'CAN.G469.5' => 'can', 'CAN.G531.1' => 'can', 'CAN.G531.2' => 'can', 'CAN.G630.31' => 'can', 'CAN.G643.16' => 'can', 'CAN.G710.45' => 'can', 'CAN.G78.60' => 'can', 'CAN.G790.38' => 'can', 'CAN.G790.39' => 'can', 'CAN.G899.8' => 'can', 'CANSAT35G1341' => 'cansat', 'CANSAT56G0428' => 'cansat', 'CANSAT78G1098' => 'cansat', 'CARHR012750' => 'chi', 'CARHR048710' => 'chi', 'CARHR149660' => 'chi', 'CARHR166520' => 'chi', 'CARHR212240' => 'chi', 'Carub.0001s1216' => 'cru', 'Carub.0002s0207' => 'cru', 'Carub.0005s0656' => 'cru', 'Carub.0005s2315' => 'cru', 'Carub.0024s0016' => 'cru', 'Ca_02265_v3' => 'car', 'Ca_06678_v3' => 'car', 'Ca_07121_v3' => 'car', 'Ca_11481_v3' => 'car', 'Ca_11482_v3' => 'car', 'Cc02_g05340' => 'ccan', 'Cc03_g10700' => 'ccan', 'Cc08_g13530' => 'ccan', 'CDE04G2090' => 'cde', 'CDE05G0271' => 'cde', 'CDE05G1275' => 'cde', 'CDE06G0386' => 'cde', 'CDE06G1491' => 'cde', 'CDE07G0355' => 'cde', 'CDE07G1267' => 'cde', 'CDE12G0379' => 'cde', 'Cfa001207' => 'cfa', 'Cfa008705' => 'cfa', 'Cfa009707' => 'cfa', 'Cfa012045' => 'cfa', 'Cfa017028' => 'cfa', 'Ciclev10004238m.g' => 'ccl', 'Ciclev10010994m.g' => 'ccl', 'Ciclev10018802m.g' => 'ccl', 'Ciclev10030625m.g' => 'ccl', 'CiPaw.01G109300' => 'cil', 'CiPaw.01G306800' => 'cil', 'CiPaw.10G165000' => 'cil', 'CiPaw.11G144900' => 'cil', 'CiPaw.12G102700' => 'cil', 'ClCG00G000080' => 'cla', 'ClCG07G005140' => 'cla', 'ClCG07G015750' => 'cla', 'ClCG10G003330' => 'cla', 'ClCG10G022770' => 'cla', 'ClCG11G005650' => 'cla', 'COL.COLO4_06484' => 'col', 'COL.COLO4_08081' => 'col', 'COL.COLO4_19420' => 'col', 'COL.COLO4_23831' => 'col', 'Cpa.g.sc1561.1' => 'cpa', 'Cpa.g.sc19.54' => 'cpa', 'Cpa.g.sc29.57' => 'cpa', 'Cpa.g.sc86.54' => 'cpa', 'CsaV3_3G003360' => 'csa', 'CsaV3_3G033030' => 'csa', 'CsaV3_4G003470' => 'csa', 'CsaV3_5G010990' => 'csa', 'CsaV3_6G002340' => 'csa', 'CSS0006044' => 'camsi', 'CSS0007473' => 'camsi', 'CSS0012357' => 'camsi', 'CSS0015885' => 'camsi', 'CSS0026819' => 'camsi', 'CSS0030594' => 'camsi', 'CSS0043559' => 'camsi', 'CSS0047377' => 'camsi', 'DCAR_000879' => 'dca', 'DCAR_005497' => 'dca', 'DCAR_006791' => 'dca', 'DCAR_009472' => 'dca', 'DCAR_009473' => 'dca', 'DCAR_020151' => 'dca', 'DCAR_028922' => 'dca', 'Dinv16974' => 'din', 'Dinv21849' => 'din', 'Dinv22711' => 'din', 'Dinv25346' => 'din', 'Dinv34488' => 'din', 'Dinv37737' => 'din', 'Dinv39053' => 'din', 'Dinv44208' => 'din', 'Duzib068G0598' => 'dzi', 'Duzib106G1213' => 'dzi', 'Duzib114G0489' => 'dzi', 'Duzib128G1445' => 'dzi', 'Duzib151G0694' => 'dzi', 'Duzib151G0858' => 'dzi', 'Duzib205G0877' => 'dzi', 'ECA233G0194' => 'eca', 'ECA238G1678' => 'eca', 'ECA248G1971' => 'eca', 'EL10Ac2g02651' => 'bvu', 'EL10Ac3g07396' => 'bvu', 'EL10Ac5g12657' => 'bvu', 'EL10Ac7g17104' => 'bvu', 'Eucgr.A00726' => 'egr', 'Eucgr.D01962' => 'egr', 'Eucgr.G03140' => 'egr', 'Eucgr.H02618' => 'egr', 'FAN01G1205' => 'fan', 'FAN02G2980' => 'fan', 'FAN03G2723' => 'fan', 'FAN04G0829' => 'fan', 'FAN04G1650' => 'fan', 'FAN05G2178' => 'fan', 'FAN05G3371' => 'fan', 'FAN05G3701' => 'fan', 'FAN06G0423' => 'fan', 'FAN06G1100' => 'fan', 'FAN07G1438' => 'fan', 'FAN08G0900' => 'fan', 'FAN09G1181' => 'fan', 'FAN10G0820' => 'fan', 'FAN12G0100' => 'fan', 'FAN12G2502' => 'fan', 'FAN13G1992' => 'fan', 'FAN14G1120' => 'fan', 'FAN14G3090' => 'fan', 'FAN16G0135' => 'fan', 'FAN17G0341' => 'fan', 'FAN18G4263' => 'fan', 'FAN22G1462' => 'fan', 'FAN24G0524' => 'fan', 'FAN25G2607' => 'fan', 'FAN26G3380' => 'fan', 'FvH4_4g12350' => 'fve', 'FvH4_5g00970' => 'fve', 'FvH4_6g09840' => 'fve', 'FvH4_7g25950' => 'fve', 'Glyma.01G133300' => 'gma', 'Glyma.01G213600' => 'gma', 'Glyma.02G097400' => 'gma', 'Glyma.03G034200' => 'gma', 'Glyma.04G222800' => 'gma', 'Glyma.06G142500' => 'gma', 'Glyma.09G274600' => 'gma', 'Glyma.11G028300' => 'gma', 'Glyma.18G213600' => 'gma', 'Glyma.18G284100' => 'gma', 'Gohir.A06G179100' => 'ghi', 'Gohir.A08G175200' => 'ghi', 'Gohir.A09G209700' => 'ghi', 'Gohir.A10G151000' => 'ghi', 'Gohir.A10G180100' => 'ghi', 'Gohir.A12G222700' => 'ghi', 'Gohir.D06G186100' => 'ghi', 'Gohir.D08G193800' => 'ghi', 'Gohir.D09G203100' => 'ghi', 'Gohir.D10G115300' => 'ghi', 'Gohir.D10G187000' => 'ghi', 'Gohir.D12G225250' => 'ghi', 'Gorai.004G204100' => 'gra', 'Gorai.006G227000' => 'gra', 'Gorai.008G241300' => 'gra', 'Gorai.010G218400' => 'gra', 'Gorai.011G127000' => 'gra', 'Gorai.011G209800' => 'gra', 'GSVIVG01005456001' => 'vvi', 'GSVIVG01030179001' => 'vvi', 'GSVIVG01031658001' => 'vvi', 'GSVIVG01032670001' => 'vvi', 'HanXRQChr01g0000101' => 'han', 'HanXRQChr01g0020491' => 'han', 'HanXRQChr03g0075681' => 'han', 'HanXRQChr05g0142381' => 'han', 'HanXRQChr07g0204111' => 'han', 'HanXRQChr09g0246761' => 'han', 'HanXRQChr10g0293891' => 'han', 'HanXRQChr14g0460721' => 'han', 'Haze_09022' => 'cav', 'Haze_09027' => 'cav', 'Haze_11714' => 'cav', 'Haze_17359' => 'cav', 'Haze_21178' => 'cav', 'Hma1.2p1_0264F.1_g106120' => 'hma', 'Hma1.2p1_0412F.1_g147260' => 'hma', 'Hma1.2p1_0537F.1_g174330' => 'hma', 'HPP92_000935' => 'vpl', 'HPP92_007529' => 'vpl', 'HPP92_014429' => 'vpl', 'HPP92_014430' => 'vpl', 'HPP92_022859' => 'vpl', 'HPP92_024659' => 'vpl', 'HPP92_024660' => 'vpl', 'HPP92_024661' => 'vpl', 'HPP92_024979' => 'vpl', 'HPP92_026200' => 'vpl', 'Hund11553' => 'sun', 'Hund13447' => 'sun', 'Hund15814' => 'sun', 'Hund24460' => 'sun', 'Lalb_Chr04g0258031' => 'lal', 'Lalb_Chr07g0190361' => 'lal', 'Lalb_Chr08g0239181' => 'lal', 'Lalb_Chr09g0324611' => 'lal', 'Lalb_Chr10g0092071' => 'lal', 'Lalb_Chr16g0379891' => 'lal', 'Lalb_Chr23g0272181' => 'lal', 'Lj1A967T45' => 'lonja', 'Lj1g0013706' => 'lja', 'Lj1g0016817' => 'lja', 'Lj1g0020671' => 'lja', 'Lj2C59G4' => 'lonja', 'Lj2g0001484' => 'lja', 'Lj3A235T29' => 'lonja', 'Lj3A238T25' => 'lonja', 'Lj8C54T8' => 'lonja', 'Lsat_1_v5_gn_1_69381' => 'lsa', 'Lsat_1_v5_gn_2_126301' => 'lsa', 'Lsat_1_v5_gn_2_51180' => 'lsa', 'Lsat_1_v5_gn_5_151941' => 'lsa', 'Lsat_1_v5_gn_6_8501' => 'lsa', 'Manes.02G031600' => 'mes', 'Manes.05G194900' => 'mes', 'Manes.07G142401' => 'mes', 'Manes.07G143300' => 'mes', 'Manes.08G171000' => 'mes', 'Manes.09G118100' => 'mes', 'Manes.10G003101' => 'mes', 'Mapoly0013s0136' => 'mpo', 'Mapoly0067s0032' => 'mpo', 'Mapoly0102s0015' => 'mpo', 'MBI03_g22786_MAGBIO' => 'mbi', 'MBI07_g25672_MAGBIO' => 'mbi', 'MBI12_g34481_MAGBIO' => 'mbi', 'MBI15_g01603_MAGBIO' => 'mbi', 'MD00G1072100' => 'mdo', 'MD01G1167900' => 'mdo', 'MD04G1027600' => 'mdo', 'MD04G1076300' => 'mdo', 'MD04G1174900' => 'mdo', 'MD07G1233900' => 'mdo', 'MD12G1188600' => 'mdo', 'Medtr0073s0020' => 'mtr', 'Medtr3g093930' => 'mtr', 'Medtr4g028090' => 'mtr', 'Medtr5g011410' => 'mtr', 'Medtr7g021910' => 'mtr', 'Medtr7g021960' => 'mtr', 'Medtr7g022010' => 'mtr', 'Medtr7g022050' => 'mtr', 'Medtr7g022160' => 'mtr', 'Medtr7g073290' => 'mtr', 'MELO3C009100.2' => 'cme', 'MELO3C014002.2' => 'cme', 'MELO3C017706.2' => 'cme', 'MELO3C020010.2' => 'cme', 'MELO3C020153.2' => 'cme', 'Migut.E01013' => 'egut', 'Migut.F01241' => 'egut', 'Migut.J00035' => 'egut', 'Migut.N00449' => 'egut', 'MSTRG.18941' => 'ama', 'MSTRG.1922' => 'ama', 'MSTRG.24601' => 'ama', 'MSTRG.8379' => 'ama', 'MSTRG.8888' => 'ama', 'Nitab4.5_0000048g0040' => 'nta', 'Nitab4.5_0000171g0030' => 'nta', 'Nitab4.5_0000409g0070' => 'nta', 'Nitab4.5_0000439g0030' => 'nta', 'Nitab4.5_0000940g0020' => 'nta', 'Nitab4.5_0001526g0040' => 'nta', 'Nitab4.5_0002745g0040' => 'nta', 'Nitab4.5_0004433g0060' => 'nta', 'Nitab4.5_0007509g0010' => 'nta', 'Nitab4.5_0012487g0030' => 'nta', 'Nn1g09757' => 'nnu', 'Nn2g10292' => 'nnu', 'Nn2g10941' => 'nnu', 'Nn4g26439' => 'nnu', 'Oeu006057.1' => 'oeu', 'Oeu013404.1' => 'oeu', 'Oeu018736.1' => 'oeu', 'Oeu040242.1' => 'oeu', 'Oeu040243.1' => 'oeu', 'Oeu048310.1' => 'oeu', 'Oeu056806.1' => 'oeu', 'Oeu057999.2' => 'oeu', 'Oeu063989.1' => 'oeu', 'Oeu063990.1' => 'oeu', 'Os01g0821900' => 'osa', 'Os01g0957100' => 'osa', 'Os03g0127700' => 'osa', 'Os03g0335500' => 'osa', 'Os05g0478300' => 'osa', 'Os10g0531700' => 'osa', 'Peaxi162Scf00286g00326' => 'pax', 'Peaxi162Scf00304g00616' => 'pax', 'Peaxi162Scf00620g00014' => 'pax', 'Peaxi162Scf00732g10028' => 'pax', 'Peaxi162Scf00739g00431' => 'pax', 'PGR031G2828' => 'pgr', 'PGR031G2876' => 'pgr', 'PGR083G0047' => 'pgr', 'PGR142G1455' => 'pgr', 'PGSC0003DMG400003945' => 'stu', 'PGSC0003DMG400016654' => 'stu', 'PGSC0003DMG400021609' => 'stu', 'PGSC0003DMG400026792' => 'stu', 'PGSC0003DMG400027585' => 'stu', 'Phvul.002G152100' => 'pvu', 'Phvul.008G017400' => 'pvu', 'Phvul.008G082500' => 'pvu', 'Phvul.009G043600' => 'pvu', 'Phvul.010G070400' => 'pvu', 'Potri.001G114500' => 'ptr', 'Potri.002G233600' => 'ptr', 'Potri.003G117500' => 'ptr', 'Potri.006G108600' => 'ptr', 'Potri.013G091000' => 'ptr', 'Potri.014G147300' => 'ptr', 'Potri.016G137000' => 'ptr', 'Potri.019G058600' => 'ptr', 'Pp3c12_23390' => 'ppa', 'Pp3c1_6700' => 'ppa', 'Pp3c1_6740' => 'ppa', 'Pp3c4_6580' => 'ppa', 'Pp3c5_2390' => 'ppa', 'Pp3c5_8630' => 'ppa', 'Pp3c6_14960' => 'ppa', 'Prupe.1G177000' => 'ppe', 'Prupe.2G264300' => 'ppe', 'Prupe.5G083400' => 'ppe', 'Prupe.6G293900' => 'ppe', 'Psat2g180600' => 'psa', 'Psat3g118600' => 'psa', 'Psat3g188280' => 'psa', 'Psat5g075040' => 'psa', 'Psat7g234840' => 'psa', 'PSO017G1774' => 'pso', 'PSO017G5267' => 'pso', 'PSO170G0079' => 'pso', 'PSO478G1886' => 'pso', 'PSO675G1515' => 'pso', 'PSO782G2030' => 'pso', 'QL06p027667' => 'qlo', 'QL07p032072' => 'qlo', 'QL07p032090' => 'qlo', 'QL08p064874' => 'qlo', 'QL12p015831' => 'qlo', 'RcHm_v2.0_Chr1g0372331' => 'rch', 'RcHm_v2.0_Chr3g0460441' => 'rch', 'RcHm_v2.0_Chr4g0410441' => 'rch', 'RcHm_v2.0_Chr7g0200411' => 'rch', 'Rhsim02G0071400' => 'rsi', 'Rhsim03G0152400' => 'rsi', 'Rhsim03G0152800' => 'rsi', 'Rhsim05G0230800' => 'rsi', 'Rhsim08G0202700' => 'rsi', 'Rhsim09G0186000' => 'rsi', 'Sabra01G0087600' => 'sbr', 'Sabra02G0178300' => 'sbr', 'Sabra03G0081900' => 'sbr', 'Sabra04G0153700' => 'sbr', 'Sabra14G0110600' => 'sbr', 'Sabra19G0073900' => 'sbr', 'SalBow1G8603' => 'sbo', 'SalBow3G3012' => 'sbo', 'SalBow5G1149' => 'sbo', 'SalBow6G1925' => 'sbo', 'SalBow6G3697' => 'sbo', 'Sc01g0009050' => 'sci', 'Sc10g0003000' => 'sci', 'Sc19g0007650' => 'sci', 'Sc20g0006990' => 'sci', 'Sed0000362' => 'sed', 'Sed0001037' => 'sed', 'Sed0014626' => 'sed', 'Sed0020531' => 'sed', 'Sed0027675' => 'sed', 'SEGI_03476' => 'sgi', 'SEGI_06202' => 'sgi', 'SEGI_06312' => 'sgi', 'SEGI_35151' => 'sgi', 'SGA_v2.0_scaffold106G30710' => 'sas', 'SGA_v2.0_scaffold160G37721' => 'sas', 'SGA_v2.0_scaffold178G39524' => 'sas', 'SGA_v2.0_scaffold196G40927' => 'sas', 'SGA_v2.0_scaffold44G16621' => 'sas', 'SGA_v2.0_scaffold85G26609' => 'sas', 'SMO147G0018' => 'smo', 'SMO259G0026' => 'smo', 'SMO335G0003' => 'smo', 'Solyc06g048620.3' => 'sly', 'Solyc06g048950.3' => 'sly', 'Solyc08g079740.3' => 'sly', 'Solyc09g015520.3' => 'sly', 'Solyc09g098290.3' => 'sly', 'Sopen06g014810' => 'spe', 'Sopen06g015280' => 'spe', 'Sopen08g028100' => 'spe', 'Sopen09g009470' => 'spe', 'Sopen09g036220' => 'spe', 'Sp1g11060' => 'spa', 'Sp2g01650' => 'spa', 'Sp2g17040' => 'spa', 'Sp5g06140' => 'spa', 'Sp6g41130' => 'spa', 'TAR365G0718' => 'tar', 'TAR365G1128' => 'tar', 'TAR369G0843' => 'tar', 'TAR374G0347' => 'tar', 'TAR375G1040' => 'tar', 'TAR623G0217' => 'tar', 'TAR633G0258' => 'tar', 'THA.LOC104803209' => 'tha', 'THA.LOC104805402' => 'tha', 'THA.LOC104818306' => 'tha', 'THA.LOC104823321' => 'tha', 'THA.LOC104825296' => 'tha', 'Thecc.03G264900' => 'tca', 'Thecc.04G151300' => 'tca', 'Thecc.04G186500' => 'tca', 'Thecc.10G179200' => 'tca', 'Thhalv10003580m.g' => 'esa', 'Thhalv10005773m.g' => 'esa', 'Thhalv10012579m.g' => 'esa', 'Thhalv10023252m.g' => 'esa', 'TPR.G14128' => 'tpr', 'TPR.G16105' => 'tpr', 'TPR.G16119' => 'tpr', 'TPR.G19596' => 'tpr', 'TPR.G2911' => 'tpr', 'TPR.G39960' => 'tpr', 'TPR.G5036' => 'tpr', 'TPR.G5042' => 'tpr', 'TWI09G1606' => 'twi', 'TWI53G2063' => 'twi', 'TWI73G0098' => 'twi', 'TWI74G0179' => 'twi', 'TWI77G0654' => 'twi', 'TWI81G0854' => 'twi', 'unitig_37.g12384' => 'ugi', 'unitig_45.g31531' => 'ugi', 'vmacro06894' => 'vma', 'vmacro09956' => 'vma', 'vmacro19076' => 'vma', 'vmacro20370' => 'vma', 'vmacro23417' => 'vma', 'VMungo0331G0692' => 'vmu', 'VMungo1215G0381' => 'vmu', 'VMungo1309G0773' => 'vmu', 'VMungo1383G0336' => 'vmu', 'VMungo1383G2525' => 'vmu', 'Zm00001eb002030' => 'zma', 'Zm00001eb016040' => 'zma', 'Zm00001eb140560' => 'zma', 'Zm00001eb149530' => 'zma', 'Zm00001eb290670' => 'zma', 'Zm00001eb362650' => 'zma', 'Zm00001eb403550' => 'zma' ) $gf_id = 'HOM05D001042' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001042' ) $data_identifier = 'HOM05D001042' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 4, 'aag' => (int) 3, 'ach' => (int) 5, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 6, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 13, 'bol' => (int) 8, 'bra' => (int) 11, 'can' => (int) 16, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 10, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 10, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 4, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 4, 'sas' => (int) 6, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 8, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb403550' $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